Polyvinyl chloride (PVC) and iron pipe materials differentially impacted manganese deposition within a drinking water distribution system that experiences black water problems because it receives soluble manganese from a surface water reservoir that undergoes biogeochemical cycling of manganese. The water quality study was conducted in a section of the distribution system of Tegucigalpa, Honduras and evaluated the influence of iron and PVC pipe materials on the concentrations of soluble and particulate iron and manganese, and determined the composition of scales formed on PVC and iron pipes. As expected, total Fe concentrations were highest in water from iron pipes. Water samples obtained from PVC pipes showed higher total Mn concentrations and more black color than that obtained from iron pipes. Scanning electron microscopy demonstrated that manganese was incorporated into the iron tubercles and thus not readily dislodged from the pipes by water flow. The PVC pipes contained a thin surface scale consisting of white and brown layers of different chemical composition; the brown layer was in contact with the water and contained 6% manganese by weight. Mn composed a greater percentage by weight of the PVC scale than the iron pipe scale; the PVC scale was easily dislodged by flowing water. This research demonstrates that interactions between water and the infrastructure used for its supply affect the quality of the final drinking water.